SMTL ID : 7l6l.1

Crystal Structure of the DNA-binding Transcriptional Repressor DeoR from Escherichia coli str. K-12

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-hexamer

Ligands

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 3 residues within 4Å: Chain A: H.111, S.113, K.114 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.113, A:S.113, A:K.114 Water bridges: A:K.114 EDO.6: 1 residues within 4Å: Chain B: R.181 1 PLIP interactions: 1 interactions with chain B Water bridges: B:K.136 EDO.13: 6 residues within 4Å: Chain C: A.21, V.24, A.44, I.45, D.46, I.49 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:A.21, C:V.24, C:D.46 EDO.25: 3 residues within 4Å: Chain F: H.111, S.113, K.114 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:S.113, F:S.113, F:K.114

20 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 6 residues within 4Å: Chain A: K.13, G.35, T.36, T.37, S.106, K.145 Ligand excluded by PLIP SO4.3: 5 residues within 4Å: Chain A: R.153, G.155, D.156, R.159 Chain E: Q.92 Ligand excluded by PLIP SO4.4: 2 residues within 4Å: Chain A: K.148, R.150 Ligand excluded by PLIP SO4.7: 7 residues within 4Å: Chain B: K.13, G.35, T.36, T.37, S.106, A.107, K.145 Ligand excluded by PLIP SO4.8: 4 residues within 4Å: Chain B: F.119, V.149, R.150, P.151 Ligand excluded by PLIP SO4.9: 4 residues within 4Å: Chain B: R.153, G.155, D.156, R.159 Ligand excluded by PLIP SO4.10: 3 residues within 4Å: Chain B: F.79, H.80, A.81 Ligand excluded by PLIP SO4.11: 2 residues within 4Å: Chain B: K.158, R.159 Ligand excluded by PLIP SO4.14: 4 residues within 4Å: Chain C: R.153, G.155, D.156, R.159 Ligand excluded by PLIP SO4.15: 6 residues within 4Å: Chain C: K.13, G.35, T.36, T.37, S.106, K.145 Ligand excluded by PLIP SO4.16: 2 residues within 4Å: Chain C: H.111, K.114 Ligand excluded by PLIP SO4.18: 5 residues within 4Å: Chain D: G.35, T.36, T.37, S.106, K.145 Ligand excluded by PLIP SO4.19: 5 residues within 4Å: Chain B: Q.92 Chain D: R.153, G.155, D.156, R.159 Ligand excluded by PLIP SO4.20: 2 residues within 4Å: Chain D: H.111, K.114 Ligand excluded by PLIP SO4.21: 2 residues within 4Å: Chain D: K.148, R.150 Ligand excluded by PLIP SO4.23: 6 residues within 4Å: Chain E: K.13, G.35, T.36, T.37, S.106, K.145 Ligand excluded by PLIP SO4.24: 4 residues within 4Å: Chain E: R.153, G.155, D.156, R.159 Ligand excluded by PLIP SO4.26: 6 residues within 4Å: Chain F: K.13, G.35, T.36, T.37, S.106, K.145 Ligand excluded by PLIP SO4.27: 5 residues within 4Å: Chain A: N.96 Chain F: R.153, G.155, D.156, R.159 Ligand excluded by PLIP SO4.28: 2 residues within 4Å: Chain F: R.14, K.18 Ligand excluded by PLIP

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 3 residues within 4Å: Chain B: A.108, C.118, F.119 Ligand excluded by PLIP CL.12: 4 residues within 4Å: Chain C: G.76 Chain E: G.76, Q.93, T.94 Ligand excluded by PLIP CL.17: 1 residues within 4Å: Chain F: K.87 Ligand excluded by PLIP CL.22: 1 residues within 4Å: Chain E: R.159 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Minasov, G. et al., Crystal Structure of the DNA-binding Transcriptional Repressor DeoR from Escherichia coli str. K-12. To Be Published

Release Date

2021-12-01

Peptides

Deoxyribose operon repressor: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Deoxyribose operon repressor